Sentence examples for with the current assemblies from inspiring English sources

tBLASTN and BLASTP (if the protein database were available) or BLAT searches were performed using the HMG domain of the well-defined Sox group B member SOX1 of Homo sapiens as the query with the current assemblies and predicted proteins in the genomes of the examined species to identify and/or retrieve the Sox group B member sequences.

Plant miRNA sequences belonging to the 31 families were aligned with the current assembly of the S. miltiorrhiza genome using SOAP2 with two mismatches allowed [ 37].

SpREJ1 is in three segments in two scaffolds, while SpREJ2 is in five scaffolds, thus with the current assembly it is difficult to compare these two genes.

The identified plant miRNA sequences were then aligned with the current assembly of the S. miltiorrhiza genome (Chen et al., unpublished) using the SOAP2 program with no more than 2 mismatches allowed [ 37].

Surprisingly, there is a clear inversion of ~0.8 Mbp only on sorghum chromosome 8 between 1 and 1.8 Mbp which corresponds to 1.2 to 2 Mbp on rice chromosomes 11 and 12. Sequence comparison with the current assembly of the 4× coverage of the Brachypodium distachyon genome identified only one contig, super-contig 7 (~17.7 Mbp).

However, we were not able to test this hypothesis with rigor, because the current assembly of the little brown bat genome is not in high quality, fragmented into scaffolds.

We estimate that ~ 150 CDS are associated with chromosome ends in the current assembly of the E. cuniculi GB-M1 genome.

Comparison of the obtained transcripts with the genomic sequences in the current assembly of the horse (EquCab2.0) indicates that it is yet not complete and/or to some extent falsely assembled.

In total we added 790 SNPs that mapped to 454-derived contigs as well as 421 SNPs with a position on Chr_random of the current assembly.

To validate the ability of BAIT to map scaffolds that have yet to be localized to regions on reference assemblies, we used it to predict the localization of all orphan scaffolds in an earlier assembly of the mouse reference (MGSCv37/mm9), and compared those predictions with the actual known locations in the current assembly (GRCm38/mm10).

These positions of loci with questionable placements indicating problem areas in the current assembly have to be refined in further assembly versions.